Locus 1314

Sequence ID X_DroMel_CAF1
Location 3,915,538 – 3,915,630
Length 92
Max. P 0.964372
window2097 window2098

overview

Window 7

Location 3,915,538 – 3,915,630
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 96.89
Mean single sequence MFE -30.19
Consensus MFE -27.02
Energy contribution -27.28
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.90
SVM decision value 0.84
SVM RNA-class probability 0.862940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3915538 92 + 22224390
GCAAAGCCAAGCCGAAGGAAAUGAAAGCGAGUUGGGGGAGUGGGGCAAAGUUUUUGGCACUGCCAGCGUUUGCGGCAGCUGCGAAAGGCUUU
((....(((..((.......................))..))).))(((((((((.((((((((.((....))))))).))).))))))))) ( -28.70)
>DroSec_CAF1 32524 91 + 1
GAAAAGCCAAGCCGAAGGAAAUGAAAGCGAGU-GGGGGAGUGUGGCAAAGUUUUUGGCACUGCCAGCGUUUGCGGCAGCUGCGAAAGGCUUU
.....((((..((...................-...))....))))(((((((((.((((((((.((....))))))).))).))))))))) ( -29.15)
>DroEre_CAF1 34743 89 + 1
GAAAAGCCAAGCCGAAGGAAAUGAAAGCGAGU-GGGG--GUGUGGCAAAGUUUUUGGCACUGCCAGCGUUUGCGGCAGCUGCGAAAGGCUUU
.....((((.(((...................-...)--)).))))(((((((((.((((((((.((....))))))).))).))))))))) ( -31.45)
>DroYak_CAF1 36532 89 + 1
GAAAAGCCAAGCCGAAGGAAAUGAAAGCGAGU-GGGG--GUGUGGCAAAGUUUUUGGCACUGCCAGCGUUUGCGGCAGCUGCGAAAGGCUUU
.....((((.(((...................-...)--)).))))(((((((((.((((((((.((....))))))).))).))))))))) ( -31.45)
>consensus
GAAAAGCCAAGCCGAAGGAAAUGAAAGCGAGU_GGGG__GUGUGGCAAAGUUUUUGGCACUGCCAGCGUUUGCGGCAGCUGCGAAAGGCUUU
.....((((.(((....)...((....))..........)).))))(((((((((.((((((((.((....))))))).))).))))))))) (-27.02 = -27.28 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,915,538 – 3,915,630
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 96.89
Mean single sequence MFE -22.38
Consensus MFE -22.31
Energy contribution -22.31
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.25
Structure conservation index 1.00
SVM decision value 1.57
SVM RNA-class probability 0.964372
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3915538 92 - 22224390
AAAGCCUUUCGCAGCUGCCGCAAACGCUGGCAGUGCCAAAAACUUUGCCCCACUCCCCCAACUCGCUUUCAUUUCCUUCGGCUUGGCUUUGC
((((((....(((.(((((((....)).))))))))..........(((..............................)))..)))))).. ( -22.31)
>DroSec_CAF1 32524 91 - 1
AAAGCCUUUCGCAGCUGCCGCAAACGCUGGCAGUGCCAAAAACUUUGCCACACUCCCCC-ACUCGCUUUCAUUUCCUUCGGCUUGGCUUUUC
((((((....(((.(((((((....)).))))))))..........(((..........-...................)))..)))))).. ( -22.35)
>DroEre_CAF1 34743 89 - 1
AAAGCCUUUCGCAGCUGCCGCAAACGCUGGCAGUGCCAAAAACUUUGCCACAC--CCCC-ACUCGCUUUCAUUUCCUUCGGCUUGGCUUUUC
((((((....(((.(((((((....)).))))))))..........(((....--....-...................)))..)))))).. ( -22.43)
>DroYak_CAF1 36532 89 - 1
AAAGCCUUUCGCAGCUGCCGCAAACGCUGGCAGUGCCAAAAACUUUGCCACAC--CCCC-ACUCGCUUUCAUUUCCUUCGGCUUGGCUUUUC
((((((....(((.(((((((....)).))))))))..........(((....--....-...................)))..)))))).. ( -22.43)
>consensus
AAAGCCUUUCGCAGCUGCCGCAAACGCUGGCAGUGCCAAAAACUUUGCCACAC__CCCC_ACUCGCUUUCAUUUCCUUCGGCUUGGCUUUUC
((((((....(((.(((((((....)).))))))))..........(((..............................)))..)))))).. (-22.31 = -22.31 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:20 2006